UCSC Genome Browser on D. melanogaster Aug. 2014 (BDGP Release 6 + ISO1 MT/dm6)
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chr4:311,642-311,651 10 bp.
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-   JASPAR TFBS
JASPAR2020 TFBS dm6
JASPAR2022 TFBS dm6
-   Mapping and Sequencing Tracks
Base Position
Chromosome Band
Gap
GC Percent
Assembly
INSDC
RefSeq Acc
Restr Enzymes
Short Match
Melting Temp.
RNASlider MFE
-   Transgenic Insertions
1M-8M Screens (R5)
9M Screen (R5)
GAA Screen
Chr4 Constructs
Landing Pad Lines (R5)
MiMIC Lines
-   Chromatin Domains
Het. Domains (R5)
BG3 9-state (R5)
S2 9-state (R5)
BG3 30-state (R5)
S2 30-state (R5)
Kc 5-state (R5)
hiHMM Models (R5)
S2 Zhou 30-state (R5)
LAD (R5)
Hi-C Domains (Embryos) (R5)
Topological Boundaries (R5)
TAD Boundaries (Nuc. Cycle 14)
HiCseg Domains (Kc167) (R5)
MARs (Embryos)
Polytene TADs (R5)
GCSDI Models (R5)
-   Genes and Gene Prediction Tracks
FlyBase Genes
FlyBase Exons
FlyBase CDS
FlyBase Pseudogenes
FlyBase Non-coding
Drosophila RefSeq Transcripts
piRNA Clusters (R5)
Pfam in RefSeq
UniProt
FlyBase 6.06 Genes
FlyBase 6.06 Proteins
FlyBase 6.06 Exons
FlyBase 6.06 CDS
FlyBase 6.06 Pseudogenes
FlyBase 6.06 Non-coding
-   ChIP Seq Tracks
Phantom Peaks (R5)
modENCODE Histones ChIP-Seq
PePr Histone Modifications Peaks
MUSIC Histone Modifications Peaks
Genome Mappability
modENCODE PolII ChIP-Seq
MUSIC PolII ChIP-Seq Peaks
PolII ChIP-Seq (Cell Lines)
RNA PolII X-ChIP-Seq
Inhibit Topoisomerases PolII ChIP-Seq
Basal Transcription Factors ChIP-Seq
GAF KD Differential Regions
Basal Transcription Factors ChIP-exo
ORGANIC Enrichment (S2 Cells)
Architectural Proteins ChIP-Seq (Kc167)
Architectural Proteins ChIP-Seq (S2)
Heat Shock Proteins ChIP-Seq (S2)
TF ChIP-nexus
ChIP-Seq MBT Embryos
CLAMP ChIP-Seq
Henriques 2018 ChIP-Seq
Zelda ChIP-Seq
Su(H) ChIP-Seq
Histone Variants ChIP-Seq (S2)
R-Loop DRIP-Seq (S2)
modENCODE Histone Modifications (R5)
modENCODE Chromosomal Proteins (R5)
modERN TF Peaks
+   ChIP-chip Tracks
+   Wolbachia Tracks
-   Expression and Regulation
Detected DHS Positions (Cell Lines) (R5)
DHS Read Density (Cell Lines) (R5)
Detected DHS Positions (Embryos)
DHS Read Density (Embryos)
MACS2 DHS
TSS (Embryonic) (R5)
TSS (Celniker) (R5)
Combined modENCODE CAGE TSS
modENCODE CAGE Tag Clusters
modENCODE CAGE Read Density
Combined RAMPAGE TSS (R5)
RAMPAGE TSS Read Density (R5)
Combined RAMPAGE TSS (Replicate 2) (R5)
RAMPAGE TSS Read Density (Replicate 2) (R5)
Combined MachiBase TSS
MachiBase TSS Read Density
Combined Exo-seq TSS
Exo-seq Read Density
Exo-seq Tag Clusters
MACE TSS
Exosome RNAi CAGE
Exosome RNAi CAGE Tag Clusters
PEAT (S2 Cells)
TES (Celniker) (R5)
TFBS HOT Spots (R5)
MACS STARR-seq Peaks
MACS STARR-seq Enrichment
MUSIC STARR-seq Peaks
MUSIC STARR-seq Enrichment
PePr STARR-seq Peaks
hkCP dCP STARR-Seq
Enhancers (R5)
Silencers (R5)
Insulators (R5)
Origins of Replication (R5)
SNS Origins of Replication (R5)
EPDnew Promoters
Schor 2017 CAGE Peaks (R5)
REDfly Regulatory Elements
CORE Promoters
GRO-Seq (R5)
Core LJ 2012 GRO-Seq (R5)
PRO-seq (R5)
Schaaf CA 2013 BG3 PRO-seq
Duarte FM 2016 PRO-seq
FStitch Nascent Transcripts
3'NT (S2 Cells)
CapSeq Tag Clusters
CapSeq Read Density
Start-Seq TSS (Larvae) (R5)
scRNAs (S2 Cells)
Permanganate ChIP-Seq (R5)
Embryos FAIRE-Seq
Schulz FAIRE-Seq
Embryos ATAC-Seq
3rd Instar Larvae ATAC-Seq
Eye Discs ATAC-Seq
-   MNase Tracks
MNase Accessibility (R5)
GAF RNAi MNase
GAF vs. LacZ RNAi MNase
NELF RNAi MNase
NELF RNAi vs. Mock MNase
MBT Embryos MNase
+   RNA Seq Tracks
-   Comparative Genomics
Drosophila Conservation (36 Species)
RefSeq Drosophila Chain/Net
Drosophila Conservation (28 Species)
Drosophila Conservation (26 Species)
PhyloP (14 Species)
PhastCons (14 Species)
Conservation (14 Species)
Drosophila Chain/Net
(dm3) D. mel. Chain
(dm3) D. mel. Net
+   Variations
-   Repeats
Natural TE
Interrupted Rpts
Microsatellite
Simple Repeats
WM + SDust
RepeatMasker
TE Density
Combined Library
TransposonPSI
TANTAN
Tallymer
RepeatDetector
Inverted Repeats
-   Updated Transcriptome Tracks
Combined modENCODE RNA-Seq (Development)
Combined Splice Junctions (Development)
modENCODE RNA-Seq (Development)
Combined modENCODE RNA-Seq (Tissues)
Combined Splice Junctions (Tissues)
modENCODE RNA-Seq (Tissues)
Combined modENCODE RNA-Seq (Cell Lines)
Combined Splice Junctions (Cell Lines)
modENCODE RNA-Seq (Cell Lines)
Combined RAMPAGE Embryos TSS
TSRchitect RAMPAGE Embryos TSS
TSRchitect Combined RAMPAGE TSS (Replicate 1)
TSRchitect RAMPAGE TSS Read Density (Replicate 1)
TSRchitect Combined RAMPAGE TSS (Replicate 2)
TSRchitect RAMPAGE TSS Read Density (Replicate 2)
       
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